BtaINT0072909 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021580 | HNRNPA3
Description
heterogeneous nuclear ribonucleoprotein A3 [Source:HGNC Symbol;Acc:HGNC:24941]
Coordinates
chr2:19702862-19703487:-
Coord C1 exon
chr2:19703277-19703487
Coord A exon
chr2:19702952-19703276
Coord C2 exon
chr2:19702862-19702951
Length
325 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
TTGATTAAAAAAATTTTTAGTTC
3' ss Score
2.77
Exon sequences
Seq C1 exon
GATTCTGTAAAGCCTGGTGCCCATCTAACAGTGAAGAAAATTTTTGTTGGTGGTATTAAAGAAGATACAGAAGAATATAATTTGAGAGACTACTTTGAAAAGTATGGCAAGATTGAAACCATAGAAGTTATGGAAGACAGGCAGAGTGGGAAAAAGAGAGGATTTGCTTTTGTAACTTTTGATGATCATGATACAGTTGATAAAATTGTTG
Seq A exon
GTAAGTAGCCATTTGAATGGAAGAACTTGAATGAGAAAGCAGAAATGATTTGTTTGCTTTGTTCTGAACTTGCTAAATTGCTTATAAGTTTGTATTATGTATAAAATAGCATAGAAAAGTGTATGGTTTAGTTTTCATGAAGTGGCTGCACGTGTAACCAGCATCTGAATCAATAAATGTGATTCACATCCCACTCAACCCCACTCAGAAGTCACTACGATTTTGATGATGTTTTAATAAGTTGTTTAGCAGTAAAGGATAACATGTGCTTTTCCAAAAACATCAAATAACTTTTCTTTGTTTGTTTGATTAAAAAAATTTTTAG
Seq C2 exon
TTCAGAAATACCACACTATTAATGGGCATAATTGTGAAGTGAAAAAGGCCCTTTCTAAACAAGAGATGCAATCTGCTGGATCACAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021580:ENSBTAT00000028757:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.099 A=NA C2=0.613
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(81.4=80.3),PF072928=NID=PU(34.9=21.1)
A:
NA
C2:
PF0007617=RRM_1=PD(17.1=38.7),PF072928=NID=PD(62.8=87.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTAAAGCCTGGTGCCCATC
R:
TCTTTGTGATCCAGCAGATTGC
Band lengths:
296-621
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]